The siRNA sequence and guide strand overhangs are determinants of in vivo duration of silencing

Nucleic Acids Research

Volumn 38, Issue 14, 2010, Pages 4788-4797

  Strapps, Walter R ^a   Pickering, Victoria ^a   Muiru, Gladys T ^a   Rice, Julie ^a   Orsborn, Stacey ^a   Polisky, Barry A ^a   Sachs, Alan ^a   Bartz, Steven R ^a  

^a Sirna Therapeutics Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEOTIDE; GAMMA INTERFERON; INTERLEUKIN 1ALPHA; INTERLEUKIN 6; LIPID NANOPARTICLE; NANOPARTICLE; POTASSIUM CHANNEL; RIBONUCLEOTIDE; SMALL INTERFERING RNA; TUMOR NECROSIS FACTOR ALPHA; UNCLASSIFIED DRUG; CYTOKINE; GUIDE RNA;

ANIMAL CELL; ANIMAL TISSUE; ARTICLE; CONCENTRATION RESPONSE; CONTROLLED STUDY; CYTOKINE RELEASE; DRUG EFFICACY; DRUG FORMULATION; DRUG POTENCY; DRUG SYNTHESIS; GENE SILENCING; GENETIC SCREENING; GENETIC TRANSFECTION; IN VITRO STUDY; IN VIVO STUDY; MOUSE; NANOENCAPSULATION; NONHUMAN; PRIORITY JOURNAL; RNA SEQUENCE; TISSUE CULTURE CELL; ANIMAL; C57BL MOUSE; CHEMISTRY; KINETICS; METABOLISM; RNA INTERFERENCE; TUMOR CELL LINE;

ANIMALIA;

ANIMALS; CELL LINE, TUMOR; CYTOKINES; KINETICS; MICE; MICE, INBRED C57BL; RNA INTERFERENCE; RNA, GUIDE; RNA, SMALL INTERFERING;

EID: 77955802914     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkq206     Document Type: Article

References (22)

1. Choung,S., Kim,Y.J., Kim,S., Park,H.O. and Choi,Y.C. (2006) Chemical modification of siRNAs to improve serum stability without loss of efficacy. Biochem. Biophys. Res. Commun., 342, 919-927.
2. Hoerter,J.A. and Walter,N.G. (2007) Chemical modification resolves the asymmetry of siRNA strand degradation in human blood serum. RNA, 13, 1887-1893.
3. Morrissey,D.V., Blanchard,K., Shaw,L., Jensen,K., Lockridge,J.A., Dickinson,B., McSwiggen,J.A., Vargeese,C., Bowman,K., Shaffer,C.S. et al. (2005) Activity of stabilized short interfering RNA in a mouse model of hepatitis B virus replication. Hepatology, 41, 1349-1356.
4. Soutschek,J., Akinc,A., Bramlage,B., Charisse,K., Constien,R., Donoghue,M., Elbashir,S., Geick,A., Hadwiger,P., Harborth,J. et al. (2004) Nature, 432, 173-178.
5. Morrissey,D.V., Lockridge,J.A., Shaw,L., Blanchard,K., Jensen,K., Breen,W., Hartsough,K., Machemer,L., Radka,S., Jadhav,V. et al. (2005) Potent and persistent in vivo anti-HBV activity of chemically modified siRNAs. Nat. Biotechnol., 23, 1002-1007.
6. Zimmermann,T.S., Lee,A.C., Akinc,A., Bramlage,B., Bumcrot,D., Fedoruk,M.N., Harborth,J., Heyes,J.A., Jeffs,L.B., John,M. et al. (2006) RNAi-mediated gene silencing in non-human primates. Nature, 441, 111-114.
7. Sioud,M. (2007) RNA interference and innate immunity. Adv. Drug Delivery Rev., 59, 153-163.
8. Judge,A.D., Bola,G., Lee,A.C.H. and MacLachlan,I. (2006) Design of noninflammatory synthetic siRNA mediating potent gene silencing in vivo. Mol. Ther., 13, 494-505.
9. Elbashir,S.M., Martinez,J., Patkaniowska,A., Lendeckel,W. and Tuschl,T. (2001) Functional anatomy of siRNAs for mediating efficient RNAi in Drosophila melanogaster embryo lysate. EMBO Journal, 20, 6877-6888.
10. Sano,M., Sierant,M., Miyagishi,M., Nakanishi,M., Takagi,Y. and Sutou,S. (2008) Effect of asymmetric terminal structures of short RNA duplexes on the RNA interference activity and strand selection. Nucleic Acids Res., 36, 5812-5821.
11. Lee,H.S., Lee,S.N., Joo,C.H., Lee,H., Lee,H.S., Yoon,S.Y., Kim,Y.K. and Choe,H. (2007) Contributions of 3′-overhang to the dissociation of small interfering RNAs from the PAZ domain: molecular dynamics simulation study. J. Mol. Graph Model, 25, 784-793.
12. Boutla,A., Delidakis,C., Livadaras,I. and Tabler,M. (2003) Oligonucleotides, 13, 295-301.
13. Hohjoh,H. (2002) RNA interference (RNA(i)) induction with various types of synthetic oligonucleotide duplexes in cultured human cells. FEBS Lett., 521, 195-199.
14. Jackson,A.L., Bartz,S.R., Schelter,J., Kobayashi,S.V., Burchard,J., Mao,M., Li,B., Cavet,G. and Linsley,P.S. (2003) Expression profiling reveals off-target gene regulation by RNAi. Nat. Biotechnol., 21, 635-637.
15. Wincott,F., DiRenzo,A., Shaffer,C., Grimm,S., Tracz,D., Workman,C., Sweedler,D., Gonzalez,C., Scaringe,S. and Usman,N. (1995) Nucleic Acids Res., 23, 2677-2684.
16. Tilesi,F., Fradiani,P., Socci,V., Willems,D. and Ascenzioni,F. (2009) Design and validation of siRNAs and shRNAs. Curr. Opin. Mol. Therapies, 11, 156-164.
17. Gong,W., Ren,Y., Zhou,H., Wang,Y., Kang,S. and Li,T. (2008) siDRM: an effective and generally applicable online siRNA design tool. Bioinformatics, 24, 2405-2406.
18. Yang,Z., Ebright,Y.W., Yu,B. and Chen,X. (2006) HEN1 recognizes 21-24 nt small RNA duplexes and deposits a methyl group onto the 2′ OH of the 3′ terminal nucleotide. Nucleic Acids Res., 34, 667-675.
19. Kirino,Y. and Mourelatos,Z. (2007) 2′-O-methyl modification in mouse piRNAs and its methylase. Nucleic Acids Symp. Ser. (Oxf), 51, 417-418.
20. Kirino,Y. and Mourelatos,Z. (2007) Mouse Piwi-interacting RNAs are 2′-O-methylated at their 3′ termini. Nat. Struct. Mol. Biol., 14, 347-378.
21. Yu,B., Yang,Z., Li,J., Minakhina,S., Yang,M., Padgett,R.W., Steward,R. and Chen,X. (2005) Methylation as a crucial step in plant microRNA biogenesis. Science, 307, 932-935.
22. Kirino,Y. and Mourelatos,Z. (2007) The mouse homolog of HEN1 is a potential methylase for Piwi-interacting RNAs. RNA, 13, 1397-13401.